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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ), 'gf_id' => 'HOM05D001079', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001079' ), 'data_identifier' => 'HOM05D001079', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001079', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08730' => 'bna', 'A01p08750' => 'bna', 'A01p32090' => 'bna', 'A01p35020' => 'bna', 'A03p41360' => 'bna', 'A05p29860' => 'bna', 'A06p06720' => 'bna', 'A08p34240' => 'bna', 'A10p21770' => 'bna', 'Aa31LG10G4080' => 'aar', 'Aa31LG11G12000' => 'aar', 'Aa31LG1G4880' => 'aar', 'Aa31LG2G21140' => 'aar', 'Aa31LG8G6480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4597' => 'aag', 'Actinidia00343' => 'ach', 'Actinidia02431' => 'ach', 'Actinidia02785' => 'ach', 'Actinidia05829' => 'ach', 'Actinidia10246' => 'ach', 'Actinidia17507' => 'ach', 'Actinidia19276' => 'ach', 'Actinidia21591' => 'ach', 'Actinidia31736' => 'ach', 'Ah.01g007170' => 'amhyb', 'Ah.01g024510' => 'amhyb', 'Ah.09g230450' => 'amhyb', 'Ah.11g039250' => 'amhyb', 'AL1G20720' => 'aly', 'AL1G57610' => 'aly', 'AL3G33150' => 'aly', 'AL6G28730' => 'aly', 'AL7G23120' => 'aly', 'Aqoxy6G01529' => 'aox', 'Aqoxy7G01372' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0WME44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.27AQJK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4LP3QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D18R6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K1SYHL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY1FTE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSL46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VH57H4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z5N3XR' => 'arhy', 'AT1G10020' => 'ath', 'AT1G50040' => 'ath', 'AT3G19680' => 'ath', 'AT4G29310' => 'ath', 'AT5G17640' => 'ath', 'ATR0705G044' => 'atr', 'ATR0705G180' => 'atr', 'ATR0767G128' => 'atr', 'Atru.chr13.909' => 'acertr', 'Atru.chr2.1647' => 'acertr', 'Atru.chr5.2229' => 'acertr', 'Atru.chr7.1500' => 'acertr', 'AUR62021378' => 'cqu', 'AUR62027034' => 'cqu', 'AUR62030878' => 'cqu', 'AUR62033296' => 'cqu', 'AUR62034969' => 'cqu', 'AUR62043879' => 'cqu', 'BcaB04g20288' => 'bca', 'BcaB04g20683' => 'bca', 'BcaB06g26040' => 'bca', 'BcaB07g30938' => 'bca', 'BcaB08g36756' => 'bca', 'BcaC04g18772' => 'bca', 'BcaC05g24815' => 'bca', 'BcaC05g24817' => 'bca', 'BcaC05g28424' => 'bca', 'BcaC07g38565' => 'bca', 'BcaC08g43184' => 'bca', 'BcaC09g48930' => 'bca', 'BcaC09g49236' => 'bca', 'BcaC09g51713' => 'bca', 'BcaNung01318' => 'bca', 'BolC1t00981H' => 'bol', 'BolC1t04065H' => 'bol', 'BolC1t04408H' => 'bol', 'BolC3t17343H' => 'bol', 'BolC5t29571H' => 'bol', 'BolC5t33231H' => 'bol', 'BolC6t35613H' => 'bol', 'BolC8t48965H' => 'bol', 'BolC9t58791H' => 'bol', 'BraA01t00823Z' => 'bra', 'BraA01t00825Z' => 'bra', 'BraA01t03335Z' => 'bra', 'BraA01t03583Z' => 'bra', 'BraA03t13290Z' => 'bra', 'BraA05t21835Z' => 'bra', 'BraA06t23886Z' => 'bra', 'BraA08t35336Z' => 'bra', 'BraA10t44237Z' => 'bra', 'C01p10270' => 'bna', 'C01p41110' => 'bna', 'C01p44430' => 'bna', 'C03p50530' => 'bna', 'C03p50540' => 'bna', 'C05p08200' => 'bna', 'C05p45060' => 'bna', 'C06p04910' => 'bna', 'C08p13340' => 'bna', 'C09p59530' => 'bna', 'CAN.G1858.3' => 'can', 'CAN.G416.49' => 'can', 'CAN.G504.8' => 'can', 'CAN.G992.21' => 'can', 'CANSAT25G0608' => 'cansat', 'CANSAT25G3328' => 'cansat', 'CANSAT56G0576' => 'cansat', 'CANSAT56G2346' => 'cansat', 'CARHR010130' => 'chi', 'CARHR095160' => 'chi', 'CARHR195540' => 'chi', 'CARHR237110' => 'chi', 'Carub.0001s0944' => 'cru', 'Carub.0001s3922' => 'cru', 'Carub.0003s1956' => 'cru', 'Carub.0006s1588' => 'cru', 'Carub.0007s1124' => 'cru', 'Ca_15561_v3' => 'car', 'Ca_17373_v3' => 'car', 'Ca_24364_v3' => 'car', 'Ca_25591_v3' => 'car', 'Ca_25885_v3' => 'car', 'CBR_g20096' => 'cbr', 'Cc02_g20250' => 'ccan', 'Cc05_g03910' => 'ccan', 'Cc06_g10680' => 'ccan', 'Cc10_g07930' => 'ccan', 'CDE04G1848' => 'cde', 'CDE04G2024' => 'cde', 'CDE06G1530' => 'cde', 'CDE07G1522' => 'cde', 'Cfa003159' => 'cfa', 'Cfa004716' => 'cfa', 'Cfa004717' => 'cfa', 'Cfa020716' => 'cfa', 'Ciclev10008480m.g' => 'ccl', 'Ciclev10028366m.g' => 'ccl', 'Ciclev10031611m.g' => 'ccl', 'CiPaw.02G046900' => 'cil', 'CiPaw.03G221900' => 'cil', 'CiPaw.05G022000' => 'cil', 'CiPaw.06G162800' => 'cil', 'CiPaw.15G153900' => 'cil', 'ClCG06G000630' => 'cla', 'ClCG10G009930' => 'cla', 'ClCG11G002010' => 'cla', 'ClCG11G014960' => 'cla', 'COL.COLO4_08665' => 'col', 'COL.COLO4_17801' => 'col', 'COL.COLO4_34715' => 'col', 'COL.COLO4_35365' => 'col', 'Cpa.g.sc160.13' => 'cpa', 'Cpa.g.sc20.84' => 'cpa', 'Cpa.g.sc73.55' => 'cpa', 'Cpa.g.sc78.36' => 'cpa', 'CsaV3_2G001770' => 'csa', 'CsaV3_3G048370' => 'csa', 'CsaV3_6G006400' => 'csa', 'CSS0008391' => 'camsi', 'CSS0008418' => 'camsi', 'CSS0027757' => 'camsi', 'CSS0037290' => 'camsi', 'CSS0041389' => 'camsi', 'CSS0043316' => 'camsi', 'CSS0045305' => 'camsi', 'CSS0046002' => 'camsi', 'CSS0046573' => 'camsi', 'CSS0049730' => 'camsi', 'DCAR_001868' => 'dca', 'DCAR_012025' => 'dca', 'DCAR_012831' => 'dca', 'DCAR_015745' => 'dca', 'DCAR_021932' => 'dca', 'DCAR_028647' => 'dca', 'Dinv09525' => 'din', 'Dinv16063' => 'din', 'Dinv36715' => 'din', 'Dinv42265' => 'din', 'Dinv43523' => 'din', 'Dinv43965' => 'din', 'Dinv44913' => 'din', 'Duzib041G0729' => 'dzi', 'Duzib052G0641' => 'dzi', 'Duzib093G1413' => 'dzi', 'Duzib106G0370' => 'dzi', 'Duzib116G0742' => 'dzi', 'Duzib132G0707' => 'dzi', 'Duzib150G0555' => 'dzi', 'Duzib168G0520' => 'dzi', 'Duzib177G0156' => 'dzi', 'Duzib187G0173' => 'dzi', 'ECA236G1564' => 'eca', 'ECA236G2712' => 'eca', 'ECA236G4216' => 'eca', 'ECA240G2547' => 'eca', 'ECA246G2870' => 'eca', 'EL10Ac1g02329' => 'bvu', 'EL10Ac8g18358' => 'bvu', 'EL10Ac9g22167' => 'bvu', 'Eucgr.C03707' => 'egr', 'Eucgr.E01747' => 'egr', 'Eucgr.F02199' => 'egr', 'Eucgr.I02507' => 'egr', 'Eucgr.L02955' => 'egr', 'FAN03G0283' => 'fan', 'FAN06G4905' => 'fan', 'FAN08G2785' => 'fan', 'FAN10G3053' => 'fan', 'FAN15G0020' => 'fan', 'FAN18G0419' => 'fan', 'FAN19G1701' => 'fan', 'FAN20G1590' => 'fan', 'FAN23G1827' => 'fan', 'FAN26G0164' => 'fan', 'FAN26G0280' => 'fan', 'FvH4_1g06490' => 'fve', 'FvH4_2g03010' => 'fve', 'FvH4_5g33420' => 'fve', 'FvH4_7g07860' => 'fve', 'Glyma.01G005800' => 'gma', 'Glyma.01G241200' => 'gma', 'Glyma.03G099900' => 'gma', 'Glyma.04G087800' => 'gma', 'Glyma.05G225400' => 'gma', 'Glyma.06G089600' => 'gma', 'Glyma.07G122800' => 'gma', 'Glyma.07G125800' => 'gma', 'Glyma.08G032200' => 'gma', 'Gohir.A01G180800' => 'ghi', 'Gohir.A03G213400' => 'ghi', 'Gohir.A05G026700' => 'ghi', 'Gohir.A05G213800' => 'ghi', 'Gohir.A06G027701' => 'ghi', 'Gohir.A07G009300' => 'ghi', 'Gohir.A11G228700' => 'ghi', 'Gohir.A11G302100' => 'ghi', 'Gohir.D01G171900' => 'ghi', 'Gohir.D02G234900' => 'ghi', 'Gohir.D05G028600' => 'ghi', 'Gohir.D05G217200' => 'ghi', 'Gohir.D06G025100' => 'ghi', 'Gohir.D07G009600' => 'ghi', 'Gohir.D11G236800' => 'ghi', 'Gohir.D11G317700' => 'ghi', 'Gorai.001G009800' => 'gra', 'Gorai.002G213400' => 'gra', 'Gorai.005G263000' => 'gra', 'Gorai.007G249900' => 'gra', 'Gorai.007G347500' => 'gra', 'Gorai.009G028600' => 'gra', 'Gorai.009G224000' => 'gra', 'Gorai.010G029500' => 'gra', 'GSVIVG01009267001' => 'vvi', 'GSVIVG01015278001' => 'vvi', 'GSVIVG01019302001' => 'vvi', 'GSVIVG01037021001' => 'vvi', 'HanXRQChr03g0069111' => 'han', 'HanXRQChr04g0111001' => 'han', 'HanXRQChr04g0117711' => 'han', 'HanXRQChr06g0172171' => 'han', 'HanXRQChr10g0316351' => 'han', 'HanXRQChr17g0551471' => 'han', 'Haze_10327' => 'cav', 'Haze_10328' => 'cav', 'Haze_15778' => 'cav', 'Haze_19025' => 'cav', 'Haze_25843' => 'cav', 'Hma1.2p1_0012F.1_g007450' => 'hma', 'Hma1.2p1_0353F.1_g133210' => 'hma', 'Hma1.2p1_0661F.1_g197920' => 'hma', 'Hma1.2p1_0663F.1_g198470' => 'hma', 'Hma1.2p1_1068F.1_g254000' => 'hma', 'Hma1.2p1_1758F.1_g301150' => 'hma', 'Hma1.2p1_2654F.1_g326210' => 'hma', 'HPP92_008352' => 'vpl', 'HPP92_017690' => 'vpl', 'HPP92_018778' => 'vpl', 'HPP92_018779' => 'vpl', 'HPP92_019512' => 'vpl', 'HPP92_022963' => 'vpl', 'Hund05251' => 'sun', 'Hund06502' => 'sun', 'Hund09082' => 'sun', 'Lalb_Chr07g0194911' => 'lal', 'Lalb_Chr08g0242831' => 'lal', 'Lalb_Chr14g0375171' => 'lal', 'Lalb_Chr14g0375181' => 'lal', 'Lalb_Chr24g0394021' => 'lal', 'Lj1g0017519' => 'lja', 'Lj1g0027477' => 'lja', 'Lj2g0013297' => 'lja', 'Lj3g0015252' => 'lja', 'Lj4C748T4' => 'lonja', 'Lj4g0014522' => 'lja', 'Lj7A560T40' => 'lonja', 'Lj7C668G1' => 'lonja', 'Lj9C338T3' => 'lonja', 'Lsat_1_v5_gn_6_108181' => 'lsa', 'Lsat_1_v5_gn_7_33221' => 'lsa', 'Lsat_1_v5_gn_7_84461' => 'lsa', 'Lsat_1_v5_gn_8_87260' => 'lsa', 'Lsat_1_v5_gn_9_113841' => 'lsa', 'Manes.03G028600' => 'mes', 'Manes.07G051500' => 'mes', 'Manes.08G156700' => 'mes', 'Manes.09G133000' => 'mes', 'Manes.10G088000' => 'mes', 'Manes.16G107200' => 'mes', 'Manes.18G052400' => 'mes', 'Mapoly0085s0075' => 'mpo', 'MBI04_g07010_MAGBIO' => 'mbi', 'MBI16_g24168_MAGBIO' => 'mbi', 'MD02G1068200' => 'mdo', 'MD02G1232700' => 'mdo', 'MD05G1108400' => 'mdo', 'MD07G1081000' => 'mdo', 'MD08G1106400' => 'mdo', 'MD08G1211700' => 'mdo', 'MD15G1199800' => 'mdo', 'MD15G1395200' => 'mdo', 'Medtr3g110630' => 'mtr', 'Medtr5g005420' => 'mtr', 'Medtr6g090060' => 'mtr', 'Medtr8g009770' => 'mtr', 'Medtr8g102270' => 'mtr', 'MELO3C003482.2' => 'cme', 'MELO3C004597.2' => 'cme', 'MELO3C018031.2' => 'cme', 'MELO3C022479.2' => 'cme', 'MELO3C024804.2' => 'cme', 'Migut.B00483' => 'egut', 'Migut.B01422' => 'egut', 'Migut.C00427' => 'egut', 'Migut.K00553' => 'egut', 'Migut.N01669' => 'egut', 'Migut.N02814' => 'egut', 'MSTRG.16665' => 'ama', 'MSTRG.20240' => 'ama', 'MSTRG.20630' => 'ama', 'MSTRG.24400' => 'ama', 'MSTRG.25009' => 'ama', 'MSTRG.26395' => 'ama', 'Nitab4.5_0000507g0010' => 'nta', 'Nitab4.5_0000566g0260' => 'nta', 'Nitab4.5_0000792g0080' => 'nta', 'Nitab4.5_0001477g0010' => 'nta', 'Nitab4.5_0001614g0060' => 'nta', 'Nitab4.5_0002415g0020' => 'nta', 'Nitab4.5_0002573g0070' => 'nta', 'Nitab4.5_0003052g0030' => 'nta', 'Nitab4.5_0005046g0010' => 'nta', 'Nitab4.5_0005400g0010' => 'nta', 'Nitab4.5_0006461g0040' => 'nta', 'Nitab4.5_0006512g0030' => 'nta', 'Nitab4.5_0006787g0030' => 'nta', 'Nitab4.5_0011498g0010' => 'nta', 'Nitab4.5_0018164g0010' => 'nta', 'Nn3g19127' => 'nnu', 'Nn6g32062' => 'nnu', 'Nn6g35353' => 'nnu', 'Nn8g39030' => 'nnu', 'Oeu002049.1' => 'oeu', 'Oeu007811.1' => 'oeu', 'Oeu010474.1' => 'oeu', 'Oeu018207.1' => 'oeu', 'Oeu032700.1' => 'oeu', 'Oeu036132.1' => 'oeu', 'Oeu036259.1' => 'oeu', 'Oeu037771.1' => 'oeu', 'Oeu044306.1' => 'oeu', 'Oeu059132.1' => 'oeu', 'Os01g0740400' => 'osa', 'Os03g0773000' => 'osa', 'Os07g0133500' => 'osa', 'Os08g0163500' => 'osa', 'Peaxi162Scf00003g02836' => 'pax', 'Peaxi162Scf00016g03241' => 'pax', 'Peaxi162Scf00628g00514' => 'pax', 'Peaxi162Scf00907g00115' => 'pax', 'Peaxi162Scf00944g00138' => 'pax', 'Peaxi162Scf01343g00144' => 'pax', 'PGR031G2138' => 'pgr', 'PGR042G0033' => 'pgr', 'PGR102G0511' => 'pgr', 'PGR142G2570' => 'pgr', 'PGR142G3794' => 'pgr', 'PGSC0003DMG400000353' => 'stu', 'PGSC0003DMG400004957' => 'stu', 'PGSC0003DMG400005130' => 'stu', 'PGSC0003DMG400018017' => 'stu', 'PGSC0003DMG400025198' => 'stu', 'PGSC0003DMG400031119' => 'stu', 'Phvul.002G049700' => 'pvu', 'Phvul.002G307300' => 'pvu', 'Phvul.004G174300' => 'pvu', 'Phvul.009G113400' => 'pvu', 'Phvul.010G039800' => 'pvu', 'Potri.001G288900' => 'ptr', 'Potri.002G112600' => 'ptr', 'Potri.005G150100' => 'ptr', 'Potri.009G084000' => 'ptr', 'Potri.013G071000' => 'ptr', 'Pp3c16_2850' => 'ppa', 'Pp3c5_6730' => 'ppa', 'Pp3c6_18500' => 'ppa', 'Prupe.1G544000' => 'ppe', 'Prupe.2G106000' => 'ppe', 'Prupe.7G217400' => 'ppe', 'Prupe.8G152100' => 'ppe', 'Psat1g048600' => 'psa', 'Psat4g216360' => 'psa', 'Psat4g227160' => 'psa', 'Psat5g019960' => 'psa', 'Psat7g018240' => 'psa', 'PSO063G0877' => 'pso', 'PSO063G3885' => 'pso', 'PSO541G2999' => 'pso', 'PSO675G4704' => 'pso', 'PSO832G1104' => 'pso', 'QL02p040632' => 'qlo', 'QL02p099105' => 'qlo', 'QL11p028613' => 'qlo', 'QL11p028742' => 'qlo', 'QL12p040666' => 'qlo', 'RcHm_v2.0_Chr1g0341581' => 'rch', 'RcHm_v2.0_Chr2g0092241' => 'rch', 'RcHm_v2.0_Chr4g0420151' => 'rch', 'RcHm_v2.0_Chr6g0247801' => 'rch', 'RcHm_v2.0_Chr7g0232151' => 'rch', 'Rhsim02G0019300' => 'rsi', 'Rhsim03G0068000' => 'rsi', 'Rhsim05G0028000' => 'rsi', 'Rhsim06G0067000' => 'rsi', 'Rhsim07G0047600' => 'rsi', 'Rhsim11G0149100' => 'rsi', 'Sabra02G0088900' => 'sbr', 'Sabra09G0064700' => 'sbr', 'Sabra13G0061900' => 'sbr', 'SalBow1G1987' => 'sbo', 'SalBow1G3998' => 'sbo', 'SalBow1G4254' => 'sbo', 'SalBow2G0882' => 'sbo', 'SalBow2G1548' => 'sbo', 'SalBow5G0340' => 'sbo', 'SalBow6G0234' => 'sbo', 'SalBow6G1013' => 'sbo', 'SalBow6G2697' => 'sbo', 'SalBow6G6894' => 'sbo', 'SalBow7G0502' => 'sbo', 'SalBow7G0676' => 'sbo', 'SalBow7G1456' => 'sbo', 'SalBow7G2657' => 'sbo', 'SalBow7G3990' => 'sbo', 'Sc02g0008300' => 'sci', 'Sc08g0004280' => 'sci', 'Sc15g0005260' => 'sci', 'Sc18g0001610' => 'sci', 'Sed0006228' => 'sed', 'Sed0009677' => 'sed', 'Sed0010137' => 'sed', 'Sed0010221' => 'sed', 'Sed0022226' => 'sed', 'Sed0022698' => 'sed', 'Sed0027816' => 'sed', 'SEGI_01421' => 'sgi', 'SEGI_11823' => 'sgi', 'SEGI_13703' => 'sgi', 'SEGI_22492' => 'sgi', 'SEGI_26966' => 'sgi', 'SEGI_33152' => 'sgi', 'SGA_v2.0_scaffold10G05173' => 'sas', 'SGA_v2.0_scaffold10G05340' => 'sas', 'SGA_v2.0_scaffold166G38312' => 'sas', 'SGA_v2.0_scaffold174G39215' => 'sas', 'SGA_v2.0_scaffold32G12972' => 'sas', 'SGA_v2.0_scaffold342G49430' => 'sas', 'SGA_v2.0_scaffold98G29376' => 'sas', 'SHI08760' => 'shi', 'SMO116G0478' => 'smo', 'SMO200G0274' => 'smo', 'SMO364G0118' => 'smo', 'Solyc01g081440.3' => 'sly', 'Solyc01g106690.3' => 'sly', 'Solyc04g077140.3' => 'sly', 'Solyc08g044380.3' => 'sly', 'Solyc10g048070.2' => 'sly', 'Solyc10g048120.3' => 'sly', 'Solyc12g008600.2' => 'sly', 'Sopen00g009400' => 'spe', 'Sopen01g033000' => 'spe', 'Sopen01g049020' => 'spe', 'Sopen08g013560' => 'spe', 'Sopen10g019150' => 'spe', 'Sopen10g019270' => 'spe', 'Sopen12g003540' => 'spe', 'Sp1g08670' => 'spa', 'Sp1g36900' => 'spa', 'Sp3g17720' => 'spa', 'Sp6g26580' => 'spa', 'Sp7g27200' => 'spa', 'TAR261G0001' => 'tar', 'TAR285G0002' => 'tar', 'TAR362G0136' => 'tar', 'TAR376G0288' => 'tar', 'TAR624G0627' => 'tar', 'TAR624G0862' => 'tar', 'TAR628G0382' => 'tar', 'TAR629G2598' => 'tar', 'TAR636G0849' => 'tar', 'TAR636G2338' => 'tar', 'TAR636G2609' => 'tar', 'THA.LOC104803996' => 'tha', 'THA.LOC104813482' => 'tha', 'THA.LOC104815217' => 'tha', 'THA.LOC104816779' => 'tha', 'THA.LOC104820818' => 'tha', 'THA.LOC104826503' => 'tha', 'Thecc.02G032100' => 'tca', 'Thecc.05G234200' => 'tca', 'Thecc.08G081000' => 'tca', 'Thecc.09G098000' => 'tca', 'Thhalv10007581m.g' => 'esa', 'Thhalv10011462m.g' => 'esa', 'Thhalv10013602m.g' => 'esa', 'Thhalv10020590m.g' => 'esa', 'Thhalv10025288m.g' => 'esa', 'TPR.G12506' => 'tpr', 'TPR.G17374' => 'tpr', 'TPR.G23464' => 'tpr', 'TPR.G8293' => 'tpr', 'TWI12G0511' => 'twi', 'TWI23G1236' => 'twi', 'TWI32G0257' => 'twi', 'TWI32G1111' => 'twi', 'TWI34G1433' => 'twi', 'TWI36G0501' => 'twi', 'TWI56G0479' => 'twi', 'TWI59G0264' => 'twi', 'TWI60G1171' => 'twi', 'unitig_21.g20713' => 'ugi', 'unitig_26.g8848' => 'ugi', 'unitig_578.g16162' => 'ugi', 'unitig_744.g24200' => 'ugi', 'unitig_750.g28414' => 'ugi', 'unitig_8.g4864' => 'ugi', 'vmacro01930' => 'vma', 'vmacro10839' => 'vma', 'vmacro13597' => 'vma', 'vmacro21114' => 'vma', 'vmacro21389' => 'vma', 'vmacro21394' => 'vma', 'VMungo0251G0599' => 'vmu', 'VMungo0331G1284' => 'vmu', 'VMungo0464G0633' => 'vmu', 'VMungo1215G1680' => 'vmu', 'VMungo1309G2056' => 'vmu', 'Zm00001eb058970' => 'zma', 'Zm00001eb117770' => 'zma', 'Zm00001eb153750' => 'zma', 'Zm00001eb213780' => 'zma', 'Zm00001eb238750' => 'zma', 'Zm00001eb299480' => 'zma', 'Zm00001eb390600' => 'zma', 'Zm00001eb415270' => 'zma' ) $gf_id = 'HOM05D001079' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001079' ) $data_identifier = 'HOM05D001079' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 11, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 5, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 3, 'sbo' => (int) 15, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 11, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 9, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415270' $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